The septal olfactory organ is a small patch of sensory epithelium located on the septal wall at the entry of the nasopharynx. There is a general consensus that by sampling olfactory stimuli during periods of rest, this organ may have an alerting function. To verify this hypothesis, we have lesioned by electrocoagulation the septal organ of male rats and recorded by polygraphy their awakening reaction in response to biologically meaningful (trimethyl-thiazoline, dimethyl sulfite, food) and meaningless (geraniol, eucalyptol) odorants. The awakening reactions of both lesioned and intact rats in response to these odorants were studied according to 3 parameters, frequency, latency and duration of awakening, and were analyzed using three-way analyses of variance. Data show that no significant difference in the awakening reactions was observed between control and lesioned animals. In all cases, the biologically meaningful odors presented the highest awakening influence. In addition, two of these odors (trimethyl-thiazoline and dimethyl sulfite) elicited a later habituation in comparison to biologically meaningless odors. From our results, it could be inferred that the hypothesis regarding an alerting function that would be specific to the septal organ, appears no longer current.